+ Site Statistics
References:
54,258,434
Abstracts:
29,560,870
PMIDs:
28,072,757
+ Search Articles
+ Subscribe to Site Feeds
Most Shared
PDF Full Text
+ PDF Full Text
Request PDF Full Text
+ Follow Us
Follow on Facebook
Follow on Twitter
Follow on LinkedIn
+ Translate
+ Recently Requested

Identification of growth trait related genes in a Yorkshire purebred pig population by genome-wide association studies



Identification of growth trait related genes in a Yorkshire purebred pig population by genome-wide association studies



Asian-Australasian Journal of Animal Sciences 30(4): 462-469



The aim of this study is to identify genomic regions or genes controlling growth traits in pigs. Using a panel of 54,148 single nucleotide polymorphisms (SNPs), we performed a genome-wide Association (GWA) study in 562 pure Yorshire pigs with four growth traits: average daily gain from 30 kg to 100 kg or 115 kg, and days to 100 kg or 115 kg. Fixed and random model Circulating Probability Unification method was used to identify the associations between 54,148 SNPs and these four traits. SNP annotations were performed through the Sus scrofa data set from Ensembl. Bioinformatics analysis, including gene ontology analysis, pathway analysis and network analysis, was used to identify the candidate genes. We detected 6 significant and 12 suggestive SNPs, and identified 9 candidate genes in close proximity to them (suppressor of glucose by autophagy [SOGA1], R-Spondin 2 [RSPO2], mitogen activated protein kinase kinase 6 [MAP2K6], phospholipase C beta 1 [PLCB1], rho GTPASE activating protein 24 [ARHGAP24], cytoplasmic polyadenylation element binding protein 4 [CPEB4], GLI family zinc finger 2 [GLI2], neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adaptor 2 [NYAP2], and zinc finger protein multitype 2 [ZFPM2]). Gene ontology analysis and literature mining indicated that the candidate genes are involved in bone, muscle, fat, and lung development. Pathway analysis revealed that PLCB1 and MAP2K6 participate in the gonadotropin signaling pathway and suggests that these two genes contribute to growth at the onset of puberty. Our results provide new clues for understanding the genetic mechanisms underlying growth traits, and may help improve these traits in future breeding programs.

(PDF emailed within 1 workday: $29.90)

Accession: 058039509

Download citation: RISBibTeXText

PMID: 27809465


Related references

Detection of quantitative trait loci for growth- and fatness-related traits in a large-scale White Duroc × Erhualian intercross pig population. Animal Genetics 43(4): 383-391, 2012

Multi-Trait GWAS and New Candidate Genes Annotation for Growth Curve Parameters in Brahman Cattle. Plos One 10(10): E0139906, 2016

A whole genome scan for quantitative trait loci for leg weakness and its related traits in a large F2 intercross population between White Duroc and Erhualian. Journal of Animal Science 87(5): 1569-1575, 2009

Genome-wide identification of quantitative trait loci for carcass composition and meat quality in a large-scale White Duroc x Chinese Erhualian resource population. Animal Genetics 40(5): 637-647, 2010

Genome-wide identification of quantitative trait loci for carcass composition and meat quality in a large-scale White Duroc Chinese Erhualian resource population. 2009

Comparison of estimated breeding values from single-trait and multiple-trait analyses for performance test data in a population of Large White swine. Journal of Animal Science 77(SUPPL 1): 3, 1999

Genome-wide identification of quantitative trait loci for pork temperature, pH decline, and glycolytic potential in a large-scale White Duroc x Chinese Erhualian resource population. Journal of Animal Science 87(1): 9-16, 2008

Genome-wide association analysis identifies quantitative trait loci for growth in a Landrace purebred population. Animal Genetics 45(3): 442-444, 2014

Large genomic region free of GWAS-based common variants contains fertility-related genes. Plos One 8(4): E61917, 2013

Identification of Reproduction-Related Gene Polymorphisms Using Whole Transcriptome Sequencing in the Large White Pig Population. G3 5(7): 1351-1360, 2016

Identification of novel genes significantly affecting growth in catfish through GWAS analysis. Molecular Genetics and Genomics 293(3): 587-599, 2017

Identification of favorable SNP alleles and candidate genes for traits related to early maturity via GWAS in upland cotton. Bmc Genomics 17: 687, 2017

Differential rates of genetic change and genotype x environment interactions in six pig breeding company populations and a purebred large white population. Animal Production 47(3): 457-466, 1988

Genome-wide mapping and identification of new quantitative trait loci affecting meat production, meat quality, and carcass traits within a Duroc purebred population. Journal of Animal Science 89(3): 601-608, 2011

Quantitative trait loci for porcine white blood cells and platelet-related traits in a White Duroc x Erhualian F resource population. Animal Genetics 40(3): 273-278, 2009